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Forum: Bioinformatics 11-13-2018, 06:19 AM
Replies: 347
Views: 185,376
Posted By dariober
bbduk with bzip2 input file

Hi- Is bzip2 input supported by `bbduk.sh`? When I try it, bbduk seems to hang as below. (It would be good to have support for bzip2)

Thanks!

bbduk.sh...
Forum: Bioinformatics 10-16-2017, 12:28 AM
Replies: 347
Views: 185,376
Posted By dariober
Hi Genomax- These are R1 and R2 real identifiers:...

Hi Genomax- These are R1 and R2 real identifiers:

@E00295:75:H7LLTALXX:8:1101:4553:1643 1:N:0:8
@E00295:75:H7LLTALXX:8:1101:4553:1643 2:N:0:8

I think one issue is that the interleaved format...
Forum: Bioinformatics 10-15-2017, 06:30 AM
Replies: 347
Views: 185,376
Posted By dariober
Different output with interleaved input

Hello again-

I think there is an inconsistent behavior in how bbduk handles interleaved input depending on whether the interleaved option is set to "true" or "auto".

Consider the case where...
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